Re: [R-sig-eco] how to calculate axis variance in metaMDS, pakage vegan?

2009-12-02 Thread Gian Maria Niccolò Benucci
Okey, I understood... I have a matrix of 40 rows (samples) and 29 columns (species). In the ordination graph the data divide in two clades ( as i supposed they must to)... and that's my best solution for reduce the Stress... metaMDS(sqrtABCD, distance = bray, k = 23, trymax = 50, autotransform

Re: [R-sig-eco] how to calculate axis variance in metaMDS, pakage vegan?

2009-12-02 Thread Jari Oksanen
On 2/12/09 19:55 PM, Gian Maria Niccolò Benucci gian.benu...@gmail.com wrote: Okey, I understood... I have a matrix of 40 rows (samples) and 29 columns (species). In the ordination graph the data divide in two clades ( as i supposed they must to)... and that's my best solution for reduce the

Re: [R-sig-eco] how to calculate axis variance in metaMDS, pakage vegan?

2009-12-02 Thread Jari Oksanen
On 2/12/09 19:55 PM, Gian Maria Niccolò Benucci gian.benu...@gmail.com wrote: ... I supposed, that If we use as many dimensions as there are variables, then we can perfectly reproduce the observed distance matrix. Isn't it? Gian, Not quite so. I think it would be useful to consult a good book,

Re: [R-sig-eco] how to calculate axis variance in metaMDS, pakage vegan?

2009-12-02 Thread Gian Maria Niccolò Benucci
Jari, Yes, you right, I am sorry I didn't say that I was talking about Euclidean measure of distance in that passage, I know that other distance are different, and finally I understood the non-linear regression stuff, now is much more clear! If you have some good book titles I would appreciate a